Multiple sequence alignment - TraesCS5A01G229100

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5A01G229100 chr5A 100.000 2967 0 0 1 2967 444902727 444899761 0.000000e+00 5480
1 TraesCS5A01G229100 chr5A 78.857 2048 303 74 408 2397 681458627 681456652 0.000000e+00 1264
2 TraesCS5A01G229100 chr5A 99.124 571 4 1 2398 2967 382106511 382107081 0.000000e+00 1026
3 TraesCS5A01G229100 chr5A 90.411 146 13 1 1 145 388578074 388577929 1.090000e-44 191
4 TraesCS5A01G229100 chr5D 95.009 2124 60 10 280 2397 346680991 346683074 0.000000e+00 3293
5 TraesCS5A01G229100 chr5D 92.701 137 4 2 143 279 346680812 346680942 3.020000e-45 193
6 TraesCS5A01G229100 chr7B 83.152 1656 231 34 408 2049 478474545 478476166 0.000000e+00 1469
7 TraesCS5A01G229100 chr2D 94.320 581 22 4 2398 2967 561051789 561051209 0.000000e+00 880
8 TraesCS5A01G229100 chr2D 94.017 585 24 4 2394 2967 537418335 537418919 0.000000e+00 876
9 TraesCS5A01G229100 chr2D 91.156 147 12 1 1 146 530480682 530480828 6.490000e-47 198
10 TraesCS5A01G229100 chr2D 88.667 150 16 1 1 149 627516589 627516440 6.530000e-42 182
11 TraesCS5A01G229100 chr4D 86.979 791 88 11 408 1192 500495215 500494434 0.000000e+00 876
12 TraesCS5A01G229100 chr4D 78.843 553 95 14 1386 1930 500494442 500493904 1.310000e-93 353
13 TraesCS5A01G229100 chr1B 93.103 580 28 6 2397 2965 662721747 662721169 0.000000e+00 839
14 TraesCS5A01G229100 chr7A 91.267 584 40 5 2394 2967 162406387 162406969 0.000000e+00 785
15 TraesCS5A01G229100 chr5B 91.099 573 22 13 2397 2967 274349967 274350512 0.000000e+00 749
16 TraesCS5A01G229100 chr5B 90.767 574 15 8 2397 2967 274461680 274462218 0.000000e+00 732
17 TraesCS5A01G229100 chr7D 92.683 328 12 6 2398 2714 592817293 592817619 2.080000e-126 462
18 TraesCS5A01G229100 chr7D 95.528 246 10 1 2723 2967 592818044 592818289 2.770000e-105 392
19 TraesCS5A01G229100 chr6A 80.286 350 63 6 619 965 578926204 578926550 2.930000e-65 259
20 TraesCS5A01G229100 chr6D 81.272 283 51 2 684 965 432810773 432811054 8.270000e-56 228
21 TraesCS5A01G229100 chr6D 89.726 146 14 1 2 146 402325175 402325320 5.050000e-43 185
22 TraesCS5A01G229100 chr2A 89.865 148 14 1 1 147 765550255 765550108 3.900000e-44 189
23 TraesCS5A01G229100 chr2A 89.116 147 15 1 1 146 122041196 122041342 6.530000e-42 182
24 TraesCS5A01G229100 chr2A 88.079 151 17 1 1 150 65675965 65675815 8.450000e-41 178
25 TraesCS5A01G229100 chr6B 89.116 147 15 1 1 146 81010657 81010511 6.530000e-42 182
26 TraesCS5A01G229100 chr1D 88.591 149 15 2 1 147 348665008 348665156 2.350000e-41 180
27 TraesCS5A01G229100 chr3D 97.260 73 1 1 2871 2942 529794640 529794568 4.020000e-24 122


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G229100 chr5A 444899761 444902727 2966 True 5480.0 5480 100.0000 1 2967 1 chr5A.!!$R2 2966
1 TraesCS5A01G229100 chr5A 681456652 681458627 1975 True 1264.0 1264 78.8570 408 2397 1 chr5A.!!$R3 1989
2 TraesCS5A01G229100 chr5A 382106511 382107081 570 False 1026.0 1026 99.1240 2398 2967 1 chr5A.!!$F1 569
3 TraesCS5A01G229100 chr5D 346680812 346683074 2262 False 1743.0 3293 93.8550 143 2397 2 chr5D.!!$F1 2254
4 TraesCS5A01G229100 chr7B 478474545 478476166 1621 False 1469.0 1469 83.1520 408 2049 1 chr7B.!!$F1 1641
5 TraesCS5A01G229100 chr2D 561051209 561051789 580 True 880.0 880 94.3200 2398 2967 1 chr2D.!!$R1 569
6 TraesCS5A01G229100 chr2D 537418335 537418919 584 False 876.0 876 94.0170 2394 2967 1 chr2D.!!$F2 573
7 TraesCS5A01G229100 chr4D 500493904 500495215 1311 True 614.5 876 82.9110 408 1930 2 chr4D.!!$R1 1522
8 TraesCS5A01G229100 chr1B 662721169 662721747 578 True 839.0 839 93.1030 2397 2965 1 chr1B.!!$R1 568
9 TraesCS5A01G229100 chr7A 162406387 162406969 582 False 785.0 785 91.2670 2394 2967 1 chr7A.!!$F1 573
10 TraesCS5A01G229100 chr5B 274349967 274350512 545 False 749.0 749 91.0990 2397 2967 1 chr5B.!!$F1 570
11 TraesCS5A01G229100 chr5B 274461680 274462218 538 False 732.0 732 90.7670 2397 2967 1 chr5B.!!$F2 570
12 TraesCS5A01G229100 chr7D 592817293 592818289 996 False 427.0 462 94.1055 2398 2967 2 chr7D.!!$F1 569

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
366 415 0.108424 AGTTGCAGACTGATCGGAGC 60.108 55.0 9.0 9.72 37.17 4.70 F
974 1047 0.173708 CCCGTCTACCAGAAGCTGAC 59.826 60.0 0.0 0.00 32.44 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1407 1483 0.038166 GAATCAGTTCCCAGTGGCCA 59.962 55.000 0.0 0.0 0.0 5.36 R
2129 2238 1.202770 AGCTCAACATATAACCCCGCC 60.203 52.381 0.0 0.0 0.0 6.13 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 62 9.853555 TTGATTTGGTATTGTGAATGTTGATAC 57.146 29.630 0.00 0.00 0.00 2.24
62 63 9.241919 TGATTTGGTATTGTGAATGTTGATACT 57.758 29.630 0.00 0.00 0.00 2.12
135 136 8.687824 ATCTTATATGCAAACAAAAAGAACCG 57.312 30.769 0.00 0.00 30.46 4.44
136 137 7.087639 TCTTATATGCAAACAAAAAGAACCGG 58.912 34.615 0.00 0.00 0.00 5.28
137 138 3.810310 ATGCAAACAAAAAGAACCGGA 57.190 38.095 9.46 0.00 0.00 5.14
138 139 3.157932 TGCAAACAAAAAGAACCGGAG 57.842 42.857 9.46 0.00 0.00 4.63
139 140 2.494073 TGCAAACAAAAAGAACCGGAGT 59.506 40.909 9.46 0.00 0.00 3.85
140 141 2.857748 GCAAACAAAAAGAACCGGAGTG 59.142 45.455 9.46 0.00 0.00 3.51
141 142 3.428316 GCAAACAAAAAGAACCGGAGTGA 60.428 43.478 9.46 0.00 0.00 3.41
147 148 2.305858 AAGAACCGGAGTGAGTACCT 57.694 50.000 9.46 0.00 0.00 3.08
206 207 4.162690 AGGATTGGGAGCGGCGTC 62.163 66.667 9.37 4.77 0.00 5.19
302 351 0.264657 TCAGATCCCCCTTCGATCCA 59.735 55.000 0.00 0.00 37.45 3.41
350 399 0.324738 TGATCTGAGGAGGCCGAGTT 60.325 55.000 0.00 0.00 0.00 3.01
361 410 1.086634 GGCCGAGTTGCAGACTGATC 61.087 60.000 6.65 0.00 39.19 2.92
362 411 1.416813 GCCGAGTTGCAGACTGATCG 61.417 60.000 6.65 9.37 39.19 3.69
363 412 0.803768 CCGAGTTGCAGACTGATCGG 60.804 60.000 18.25 18.25 39.19 4.18
364 413 0.171231 CGAGTTGCAGACTGATCGGA 59.829 55.000 9.00 0.00 39.19 4.55
365 414 1.796982 CGAGTTGCAGACTGATCGGAG 60.797 57.143 9.00 0.00 39.19 4.63
366 415 0.108424 AGTTGCAGACTGATCGGAGC 60.108 55.000 9.00 9.72 37.17 4.70
399 448 0.974010 TTTAGCCCCGGTCGATGAGT 60.974 55.000 0.00 0.00 0.00 3.41
404 453 2.786495 CCCGGTCGATGAGTGAGGG 61.786 68.421 0.00 0.00 0.00 4.30
405 454 2.786495 CCGGTCGATGAGTGAGGGG 61.786 68.421 0.00 0.00 0.00 4.79
406 455 2.501610 GGTCGATGAGTGAGGGGC 59.498 66.667 0.00 0.00 0.00 5.80
496 545 3.506096 GGCCGGAAGCGTAAAGGC 61.506 66.667 5.05 4.38 45.17 4.35
595 650 2.550978 CGGATGACATAGTCCACCAAC 58.449 52.381 0.00 0.00 34.05 3.77
647 702 0.739813 GACTACATTGCCTTCCGCGT 60.740 55.000 4.92 0.00 42.08 6.01
724 779 3.607661 GATCTCTCCGCCCGGTCC 61.608 72.222 6.61 0.00 36.47 4.46
795 868 3.942115 GCCAGATAACCTTCTTCCAGAAC 59.058 47.826 0.00 0.00 29.89 3.01
850 923 4.147449 TCCAGCGCCACAGGATCG 62.147 66.667 2.29 0.00 0.00 3.69
867 940 0.321564 TCGTTGGCTTCACTGATGGG 60.322 55.000 0.00 0.00 0.00 4.00
974 1047 0.173708 CCCGTCTACCAGAAGCTGAC 59.826 60.000 0.00 0.00 32.44 3.51
1011 1084 3.869272 CTCCGCATGAACGCTGCC 61.869 66.667 0.00 0.00 36.24 4.85
1046 1119 2.108075 TGTCATCCACCACTTCCATTGT 59.892 45.455 0.00 0.00 0.00 2.71
1050 1123 1.142060 TCCACCACTTCCATTGTCGTT 59.858 47.619 0.00 0.00 0.00 3.85
1072 1145 1.603739 GCCTGGTTCCCTTGGTCAC 60.604 63.158 0.00 0.00 0.00 3.67
1095 1168 2.747822 GGTGCTCAGTGCTGATGCG 61.748 63.158 2.06 0.00 43.34 4.73
1125 1198 1.004044 AGCTGGGAGGTCATTCACAAG 59.996 52.381 0.00 0.00 28.30 3.16
1220 1293 2.441750 TGCAAGTCTACCCTCCAAAACT 59.558 45.455 0.00 0.00 0.00 2.66
1290 1363 4.010349 ACCCATTTTTCTGCAGCTACTAC 58.990 43.478 9.47 0.00 0.00 2.73
1293 1366 4.702131 CCATTTTTCTGCAGCTACTACCTT 59.298 41.667 9.47 0.00 0.00 3.50
1374 1447 0.968901 TGGAGGAGTGGCGACGTTAT 60.969 55.000 0.00 0.00 0.00 1.89
1407 1483 4.985538 TCTTCAAGGTTGATGTAAGCCTT 58.014 39.130 5.73 0.00 41.55 4.35
1461 1537 1.579084 GCGACCGGGCATTGTTTGTA 61.579 55.000 8.76 0.00 0.00 2.41
1588 1664 1.072806 TGAGCAGCCAGTCATTTGAGT 59.927 47.619 0.00 0.00 0.00 3.41
1634 1710 2.557056 ACGACGTGAAGGAGAAGATTCA 59.443 45.455 0.00 0.00 33.16 2.57
1943 2043 4.740154 TCAATCAGGAAAGGGAAAAGGA 57.260 40.909 0.00 0.00 0.00 3.36
1967 2067 6.522054 AGTGTCGAACTGAAGAAGGAATAAA 58.478 36.000 0.00 0.00 37.88 1.40
1994 2094 4.935808 ACCGTAATTTAGACTGCTCTTTGG 59.064 41.667 0.00 0.00 0.00 3.28
2135 2244 2.167662 ACTGAAAAATTACTGGCGGGG 58.832 47.619 0.00 0.00 0.00 5.73
2137 2246 2.560981 CTGAAAAATTACTGGCGGGGTT 59.439 45.455 0.00 0.00 0.00 4.11
2138 2247 3.759618 CTGAAAAATTACTGGCGGGGTTA 59.240 43.478 0.00 0.00 0.00 2.85
2139 2248 4.345854 TGAAAAATTACTGGCGGGGTTAT 58.654 39.130 0.00 0.00 0.00 1.89
2140 2249 5.507637 TGAAAAATTACTGGCGGGGTTATA 58.492 37.500 0.00 0.00 0.00 0.98
2141 2250 6.130569 TGAAAAATTACTGGCGGGGTTATAT 58.869 36.000 0.00 0.00 0.00 0.86
2142 2251 6.039941 TGAAAAATTACTGGCGGGGTTATATG 59.960 38.462 0.00 0.00 0.00 1.78
2153 2285 4.497507 GCGGGGTTATATGTTGAGCTTTTC 60.498 45.833 0.00 0.00 0.00 2.29
2154 2286 4.881850 CGGGGTTATATGTTGAGCTTTTCT 59.118 41.667 0.00 0.00 0.00 2.52
2155 2287 5.220854 CGGGGTTATATGTTGAGCTTTTCTG 60.221 44.000 0.00 0.00 0.00 3.02
2156 2288 5.652452 GGGGTTATATGTTGAGCTTTTCTGT 59.348 40.000 0.00 0.00 0.00 3.41
2157 2289 6.404734 GGGGTTATATGTTGAGCTTTTCTGTG 60.405 42.308 0.00 0.00 0.00 3.66
2158 2290 6.151144 GGGTTATATGTTGAGCTTTTCTGTGT 59.849 38.462 0.00 0.00 0.00 3.72
2159 2291 7.335924 GGGTTATATGTTGAGCTTTTCTGTGTA 59.664 37.037 0.00 0.00 0.00 2.90
2160 2292 8.391106 GGTTATATGTTGAGCTTTTCTGTGTAG 58.609 37.037 0.00 0.00 0.00 2.74
2253 2388 2.031069 TCAGTGTACTCGCTGTTGAGTC 60.031 50.000 7.76 0.00 45.97 3.36
2345 2484 5.533528 CCTTGATGAATCATGGCAGAATGTA 59.466 40.000 0.00 0.00 42.70 2.29
2655 2816 3.861797 CGCCCTAATCCCACCGCT 61.862 66.667 0.00 0.00 0.00 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 9.853555 GTATCAACATTCACAATACCAAATCAA 57.146 29.630 0.00 0.0 0.00 2.57
36 37 9.241919 AGTATCAACATTCACAATACCAAATCA 57.758 29.630 0.00 0.0 0.00 2.57
109 110 9.139174 CGGTTCTTTTTGTTTGCATATAAGATT 57.861 29.630 0.00 0.0 0.00 2.40
110 111 7.759433 CCGGTTCTTTTTGTTTGCATATAAGAT 59.241 33.333 0.00 0.0 0.00 2.40
111 112 7.040340 TCCGGTTCTTTTTGTTTGCATATAAGA 60.040 33.333 0.00 0.0 0.00 2.10
112 113 7.087639 TCCGGTTCTTTTTGTTTGCATATAAG 58.912 34.615 0.00 0.0 0.00 1.73
113 114 6.982852 TCCGGTTCTTTTTGTTTGCATATAA 58.017 32.000 0.00 0.0 0.00 0.98
114 115 6.207810 ACTCCGGTTCTTTTTGTTTGCATATA 59.792 34.615 0.00 0.0 0.00 0.86
115 116 5.010617 ACTCCGGTTCTTTTTGTTTGCATAT 59.989 36.000 0.00 0.0 0.00 1.78
116 117 4.339814 ACTCCGGTTCTTTTTGTTTGCATA 59.660 37.500 0.00 0.0 0.00 3.14
117 118 3.132111 ACTCCGGTTCTTTTTGTTTGCAT 59.868 39.130 0.00 0.0 0.00 3.96
118 119 2.494073 ACTCCGGTTCTTTTTGTTTGCA 59.506 40.909 0.00 0.0 0.00 4.08
119 120 2.857748 CACTCCGGTTCTTTTTGTTTGC 59.142 45.455 0.00 0.0 0.00 3.68
120 121 4.142469 ACTCACTCCGGTTCTTTTTGTTTG 60.142 41.667 0.00 0.0 0.00 2.93
121 122 4.014406 ACTCACTCCGGTTCTTTTTGTTT 58.986 39.130 0.00 0.0 0.00 2.83
122 123 3.617284 ACTCACTCCGGTTCTTTTTGTT 58.383 40.909 0.00 0.0 0.00 2.83
123 124 3.277142 ACTCACTCCGGTTCTTTTTGT 57.723 42.857 0.00 0.0 0.00 2.83
124 125 3.497262 GGTACTCACTCCGGTTCTTTTTG 59.503 47.826 0.00 0.0 0.00 2.44
125 126 3.390311 AGGTACTCACTCCGGTTCTTTTT 59.610 43.478 0.00 0.0 0.00 1.94
126 127 2.970640 AGGTACTCACTCCGGTTCTTTT 59.029 45.455 0.00 0.0 0.00 2.27
127 128 2.299297 CAGGTACTCACTCCGGTTCTTT 59.701 50.000 0.00 0.0 34.60 2.52
128 129 1.893801 CAGGTACTCACTCCGGTTCTT 59.106 52.381 0.00 0.0 34.60 2.52
129 130 1.075050 TCAGGTACTCACTCCGGTTCT 59.925 52.381 0.00 0.0 34.60 3.01
130 131 1.542492 TCAGGTACTCACTCCGGTTC 58.458 55.000 0.00 0.0 34.60 3.62
131 132 2.005370 TTCAGGTACTCACTCCGGTT 57.995 50.000 0.00 0.0 34.60 4.44
132 133 1.893801 CTTTCAGGTACTCACTCCGGT 59.106 52.381 0.00 0.0 34.60 5.28
133 134 2.168496 TCTTTCAGGTACTCACTCCGG 58.832 52.381 0.00 0.0 34.60 5.14
134 135 5.561145 CGATATCTTTCAGGTACTCACTCCG 60.561 48.000 0.34 0.0 34.60 4.63
135 136 5.764131 CGATATCTTTCAGGTACTCACTCC 58.236 45.833 0.34 0.0 34.60 3.85
136 137 5.216648 GCGATATCTTTCAGGTACTCACTC 58.783 45.833 0.34 0.0 34.60 3.51
137 138 4.261238 CGCGATATCTTTCAGGTACTCACT 60.261 45.833 0.00 0.0 34.60 3.41
138 139 3.975670 CGCGATATCTTTCAGGTACTCAC 59.024 47.826 0.00 0.0 34.60 3.51
139 140 3.881089 TCGCGATATCTTTCAGGTACTCA 59.119 43.478 3.71 0.0 34.60 3.41
140 141 4.485024 TCGCGATATCTTTCAGGTACTC 57.515 45.455 3.71 0.0 34.60 2.59
141 142 4.913335 TTCGCGATATCTTTCAGGTACT 57.087 40.909 10.88 0.0 43.88 2.73
147 148 7.302350 TCTTTTCATTTCGCGATATCTTTCA 57.698 32.000 10.88 0.0 0.00 2.69
206 207 2.732619 GCCGGAGTAGGGTGGAAGG 61.733 68.421 5.05 0.0 0.00 3.46
247 248 4.142004 GGAGAAATAAGAACCTAGCGTGGA 60.142 45.833 5.06 0.0 0.00 4.02
249 250 4.567159 GTGGAGAAATAAGAACCTAGCGTG 59.433 45.833 0.00 0.0 0.00 5.34
250 251 4.382793 GGTGGAGAAATAAGAACCTAGCGT 60.383 45.833 0.00 0.0 0.00 5.07
251 252 4.120589 GGTGGAGAAATAAGAACCTAGCG 58.879 47.826 0.00 0.0 0.00 4.26
252 253 4.452825 GGGTGGAGAAATAAGAACCTAGC 58.547 47.826 0.00 0.0 0.00 3.42
253 254 4.404715 TCGGGTGGAGAAATAAGAACCTAG 59.595 45.833 0.00 0.0 0.00 3.02
254 255 4.355549 TCGGGTGGAGAAATAAGAACCTA 58.644 43.478 0.00 0.0 0.00 3.08
302 351 5.003804 CGATCCCAAATCGGAGGAATTAAT 58.996 41.667 0.00 0.0 37.84 1.40
350 399 2.895680 GGCTCCGATCAGTCTGCA 59.104 61.111 0.00 0.0 0.00 4.41
366 415 0.321996 GCTAAATAGGCCTCCTCCGG 59.678 60.000 9.68 0.0 34.61 5.14
386 435 2.786495 CCCTCACTCATCGACCGGG 61.786 68.421 6.32 0.0 0.00 5.73
481 530 2.822701 GGGCCTTTACGCTTCCGG 60.823 66.667 0.84 0.0 39.22 5.14
496 545 0.107165 GGAGAAGGGGAAACGATGGG 60.107 60.000 0.00 0.0 0.00 4.00
579 634 1.067142 GCGAGTTGGTGGACTATGTCA 60.067 52.381 0.00 0.0 33.68 3.58
850 923 0.610232 AGCCCATCAGTGAAGCCAAC 60.610 55.000 0.00 0.0 0.00 3.77
867 940 1.239296 TGTGCAGCAGGATGACAAGC 61.239 55.000 0.00 0.0 39.69 4.01
890 963 2.126071 CGCGGATCGTGGTGTTCT 60.126 61.111 0.00 0.0 33.47 3.01
1011 1084 2.157668 GGATGACACACTGCTACAAACG 59.842 50.000 0.00 0.0 0.00 3.60
1046 1119 2.112297 GGAACCAGGCCACAACGA 59.888 61.111 5.01 0.0 0.00 3.85
1095 1168 3.635268 CTCCCAGCTTGAGTGGCCC 62.635 68.421 0.00 0.0 33.24 5.80
1125 1198 6.238759 GCAAGGTATTGGAAAGATACATGTCC 60.239 42.308 0.00 0.0 36.88 4.02
1290 1363 1.450312 GCCATCGGACTCCACAAGG 60.450 63.158 0.00 0.0 0.00 3.61
1293 1366 2.606213 TGGCCATCGGACTCCACA 60.606 61.111 0.00 0.0 0.00 4.17
1347 1420 1.888436 GCCACTCCTCCACATCACGA 61.888 60.000 0.00 0.0 0.00 4.35
1374 1447 5.375773 TCAACCTTGAAGATCACAATGACA 58.624 37.500 12.13 0.0 33.55 3.58
1382 1455 4.943705 GGCTTACATCAACCTTGAAGATCA 59.056 41.667 0.00 0.0 41.13 2.92
1407 1483 0.038166 GAATCAGTTCCCAGTGGCCA 59.962 55.000 0.00 0.0 0.00 5.36
1461 1537 1.611419 CAGGCACCTGTCCATGGAT 59.389 57.895 19.62 0.0 39.10 3.41
1558 1634 1.455217 GGCTGCTCAGGGAATGCAT 60.455 57.895 0.00 0.0 36.07 3.96
1588 1664 2.125065 ACACAACGTCGTTGGCCA 60.125 55.556 34.34 0.0 46.50 5.36
1726 1807 6.008331 TGTTGTTGCTAGAGAGAAGGTAGTA 58.992 40.000 0.00 0.0 0.00 1.82
1728 1809 5.392767 TGTTGTTGCTAGAGAGAAGGTAG 57.607 43.478 0.00 0.0 0.00 3.18
1943 2043 4.608948 ATTCCTTCTTCAGTTCGACACT 57.391 40.909 0.00 0.0 35.35 3.55
1967 2067 4.406003 AGAGCAGTCTAAATTACGGTGGAT 59.594 41.667 0.00 0.0 0.00 3.41
2128 2237 1.476110 GCTCAACATATAACCCCGCCA 60.476 52.381 0.00 0.0 0.00 5.69
2129 2238 1.202770 AGCTCAACATATAACCCCGCC 60.203 52.381 0.00 0.0 0.00 6.13
2135 2244 8.936864 ACTACACAGAAAAGCTCAACATATAAC 58.063 33.333 0.00 0.0 0.00 1.89
2137 2246 8.094548 ACACTACACAGAAAAGCTCAACATATA 58.905 33.333 0.00 0.0 0.00 0.86
2138 2247 6.936900 ACACTACACAGAAAAGCTCAACATAT 59.063 34.615 0.00 0.0 0.00 1.78
2139 2248 6.288294 ACACTACACAGAAAAGCTCAACATA 58.712 36.000 0.00 0.0 0.00 2.29
2140 2249 5.126067 ACACTACACAGAAAAGCTCAACAT 58.874 37.500 0.00 0.0 0.00 2.71
2141 2250 4.513442 ACACTACACAGAAAAGCTCAACA 58.487 39.130 0.00 0.0 0.00 3.33
2142 2251 5.485662 AACACTACACAGAAAAGCTCAAC 57.514 39.130 0.00 0.0 0.00 3.18
2153 2285 4.870426 CCTAACTGGCATAACACTACACAG 59.130 45.833 0.00 0.0 0.00 3.66
2154 2286 4.528987 TCCTAACTGGCATAACACTACACA 59.471 41.667 0.00 0.0 35.26 3.72
2155 2287 5.080969 TCCTAACTGGCATAACACTACAC 57.919 43.478 0.00 0.0 35.26 2.90
2156 2288 5.661312 AGATCCTAACTGGCATAACACTACA 59.339 40.000 0.00 0.0 35.26 2.74
2157 2289 5.986135 CAGATCCTAACTGGCATAACACTAC 59.014 44.000 0.00 0.0 35.26 2.73
2158 2290 5.453339 GCAGATCCTAACTGGCATAACACTA 60.453 44.000 0.00 0.0 36.09 2.74
2159 2291 4.684485 GCAGATCCTAACTGGCATAACACT 60.684 45.833 0.00 0.0 36.09 3.55
2160 2292 3.561725 GCAGATCCTAACTGGCATAACAC 59.438 47.826 0.00 0.0 36.09 3.32
2253 2388 7.985476 ACTATAACAAACAAATCGGGATTCAG 58.015 34.615 0.00 0.0 0.00 3.02
2345 2484 6.595716 GCTGGTCTACTTGATGTTATTCAGTT 59.404 38.462 0.00 0.0 0.00 3.16


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.